Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 150 of 335
Found at i:44041742 original size:6 final size:6
Alignment explanation
Indices: 44041721--44041762 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
44041711 TAATAAAGAG
*
44041721 AAAAT- AAAAT- AAAATA AAAATA AAAATA AATAATA ATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA A
44041763 TGAGAAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 10 0.29
6 19 0.56
7 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:44045265 original size:30 final size:29
Alignment explanation
Indices: 44045171--44045272 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
44045161 TATAGTGAAT
* * *
44045171 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
44045200 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
44045228 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
44045258 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44045273 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:44048097 original size:14 final size:14
Alignment explanation
Indices: 44048078--44048104 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44048068 GAACCTCGTG
44048078 GTATAGCTATGGTA
1 GTATAGCTATGGTA
44048092 GTATAGCTATGGT
1 GTATAGCTATGGT
44048105 GAGTTGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.30, T:0.37
Consensus pattern (14 bp):
GTATAGCTATGGTA
Found at i:44051561 original size:15 final size:15
Alignment explanation
Indices: 44051541--44051572 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44051531 TATCACAAAT
44051541 TACTATGAATACAAC
1 TACTATGAATACAAC
44051556 TACTATGAATACAAC
1 TACTATGAATACAAC
44051571 TA
1 TA
44051573 GGCATTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (15 bp):
TACTATGAATACAAC
Found at i:44060977 original size:31 final size:31
Alignment explanation
Indices: 44060936--44060999 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
44060926 CCTTTTCATA
*
44060936 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
44060967 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
44060998 TT
1 TT
44061000 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:44061245 original size:24 final size:24
Alignment explanation
Indices: 44061193--44061429 Score: 329
Period size: 24 Copynumber: 10.0 Consensus size: 24
44061183 GCTTTATCAT
*
44061193 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
44061218 ATAACTAGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
44061242 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
44061265 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
44061289 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
44061313 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
44061336 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
44061360 ATATCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
44061384 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44061407 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44061430 TCACTTCCTC
Statistics
Matches: 191, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
23 64 0.34
24 116 0.61
25 11 0.06
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44061269 original size:47 final size:48
Alignment explanation
Indices: 44061192--44061430 Score: 333
Period size: 47 Copynumber: 5.0 Consensus size: 48
44061182 TGCTTTATCA
* * *
44061192 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
44061241 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
44061288 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * * *
44061335 AATAACTGGGGCGTAAGCCCTTTTGATATCTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
44061383 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
44061430 T
1 T
44061431 CACTTCCTCC
Statistics
Matches: 172, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 112 0.65
48 47 0.27
49 13 0.08
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:44061293 original size:71 final size:71
Alignment explanation
Indices: 44061193--44061429 Score: 386
Period size: 71 Copynumber: 3.3 Consensus size: 71
44061183 GCTTTATCAT
* * * * *
44061193 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCGTAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
44061257 GCCCTTTA
64 GCCCTTTA
44061265 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
44061330 CCTTTA
66 CCTTTA
*
44061336 ATAACTGGGGCGTAAGCCCTTTTGATATCTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
44061401 CCTTTA
66 CCTTTA
*
44061407 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCGTAAGCCCTTTT
44061430 TCACTTCCTC
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
71 145 0.92
72 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:44061502 original size:9 final size:9
Alignment explanation
Indices: 44061488--44061544 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
44061478 ATCTCGTGTG
44061488 CATATCATA
1 CATATCATA
*
44061497 CATATCATGTG
1 CATATCA--TA
44061508 CATATCATA
1 CATATCATA
* *
44061517 CATGTCATGTG
1 CATATCA--TA
44061528 CATATCATA
1 CATATCATA
44061537 CATATCAT
1 CATATCAT
44061545 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44061507 original size:20 final size:20
Alignment explanation
Indices: 44061484--44061546 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
44061474 GAACATCTCG
44061484 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
44061504 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
44061524 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
44061544 TGT
1 TGT
44061547 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:44062827 original size:27 final size:27
Alignment explanation
Indices: 44062765--44062842 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
44062755 GGGCATATTC
44062765 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
44062792 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
44062819 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
44062843 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:44062891 original size:27 final size:26
Alignment explanation
Indices: 44062860--44062934 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
44062850 TTTCATCCTA
* *
44062860 CAAGGGTGTTTTGGTAATTTTACAAAT
1 CAAGGGTATTTT-GTAATTTTACAAAC
*
44062887 TAAGGGTATTTCTGTAATTTTACAAAC
1 CAAGGGTATTT-TGTAATTTTACAAAC
44062914 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTT-GTAATTTT
44062935 GTAAATCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (26 bp):
CAAGGGTATTTTGTAATTTTACAAAC
Found at i:44062956 original size:27 final size:27
Alignment explanation
Indices: 44062927--44063266 Score: 407
Period size: 27 Copynumber: 12.6 Consensus size: 27
44062917 GGGTATTTTA
* * *
44062927 GTAATTTTGTAAATCGATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
44062954 GTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44062981 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44063008 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44063035 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44063062 ATAATTATGTAAATCG-GAGGTAAAACG
1 GTAATTCTGTAAATCGAG-GGTAAAACG
* * * *
44063089 GTAATTATGTAAATTGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
44063116 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
44063143 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
44063170 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44063197 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
44063224 GTAATTCTAT-AACCTGAGGGTAAAATG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44063251 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
44063267 GGAGTACTTT
Statistics
Matches: 274, Mismatches: 33, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.02
27 265 0.97
28 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44066749 original size:47 final size:47
Alignment explanation
Indices: 44066685--44066946 Score: 225
Period size: 47 Copynumber: 5.6 Consensus size: 47
44066675 ATCCATAAGT
44066685 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * * * *
44066732 GAACTTGGACTCAACTCAACAAGTTCAGACG-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCA-C
*
44066778 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * *
44066825 AAATTCGAACTCAACTCAATGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
44066871 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* *
44066918 GAACTCGGACTCAACTTAACAAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
44066947 CGTTCGCATC
Statistics
Matches: 161, Mismatches: 40, Indels: 28
0.70 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 1 0.01
45 4 0.02
46 56 0.35
47 83 0.52
48 4 0.02
49 1 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44066772 original size:93 final size:93
Alignment explanation
Indices: 44066638--44066996 Score: 542
Period size: 93 Copynumber: 3.9 Consensus size: 93
44066628 CGCCCATAAG
* ** * * *
44066638 CGAACTCGGACTCAACTCAATGAGCTT-GGGCATTCGTATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTTGGACTCAACTCAACAAG-TTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
44066702 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* *
44066731 CGAACTTGGACTCAACTCAACAAGTTCAGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTTGGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
44066796 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * ** *
44066824 C-AAATTCGAACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTT-GGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
44066888 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
* *
44066917 CGAACTCGGACTCAACTTAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTTGGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
44066982 ACGAGTTTGGATGCC
66 ACGAGTTCGGATGCC
44066997 CAAATATCCG
Statistics
Matches: 240, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
92 6 0.03
93 231 0.96
94 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (93 bp):
CGAACTTGGACTCAACTCAACAAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:44066803 original size:46 final size:46
Alignment explanation
Indices: 44066631--44066988 Score: 244
Period size: 46 Copynumber: 7.7 Consensus size: 46
44066621 TGTAACCCGC
* * * * *
44066631 CCATAAGCGAACTCGGACTCAACTCAATGAGCTT-GGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCAT
* * * *
44066677 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * * *
44066723 ACATTTCA-CGAACTTGGACTCAACTCAACAAGTTCAGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
44066770 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * ** * * * *
44066816 ACATTTCA-CAAATTCGAACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
44066863 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * *
44066909 ACATTTCA-CGAACTCGGACTCAACTTAACAAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
44066956 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
44066989 TGGATGCCCA
Statistics
Matches: 228, Mismatches: 68, Indels: 32
0.70 0.21 0.10
Matches are distributed among these distances:
45 8 0.04
46 120 0.53
47 94 0.41
48 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:44066899 original size:186 final size:186
Alignment explanation
Indices: 44066647--44066996 Score: 621
Period size: 186 Copynumber: 1.9 Consensus size: 186
44066637 GCGAACTCGG
* *
44066647 ACTCAACTCAATGAGCTTGGGCATTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 ACTCAACTCAATGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
*
44066712 GATGCCTAGTTACATTTCACGAACTTGGACTCAACTCAACAAGTTCAGACGTTCGCATCCATAAG
66 GATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACAAGTTCAGACGTTCGCATCCATAAG
44066777 TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACAAATTCGA
131 TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACAAATTCGA
44066833 ACTCAACTCAATGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 ACTCAACTCAATGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
* *
44066897 GGATGCCTAGTTACATTTCACGAACTCGGACTCAACTTAACAAGTTCGGACGTTCGCATCCATAA
65 GGATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACAAGTTCAGACGTTCGCATCCATAA
* *
44066962 GTGAACTCGGACTCAACTCAACGAGTTTGGATGCC
130 GTGAACTCAGACTCAACTCAACGAGTTCGGATGCC
44066997 CAAATATCCG
Statistics
Matches: 156, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
185 2 0.01
186 154 0.99
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (186 bp):
ACTCAACTCAATGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
GATGCCTAGTTACATTTCACGAACTCGGACTCAACTCAACAAGTTCAGACGTTCGCATCCATAAG
TGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACAAATTCGA
Found at i:44073719 original size:15 final size:15
Alignment explanation
Indices: 44073699--44073732 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44073689 GTGAAACCTC
44073699 TTTTCT-TTTTTTCTT
1 TTTTCTCTTTTTT-TT
44073714 TTTTCTCTTTTTTTT
1 TTTTCTCTTTTTTTT
44073729 TTTT
1 TTTT
44073733 GATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTCTTTTTTTT
Found at i:44073722 original size:9 final size:8
Alignment explanation
Indices: 44073699--44073732 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
44073689 GTGAAACCTC
44073699 TTTTCTTT
1 TTTTCTTT
44073707 TTTTCTTT
1 TTTTCTTT
44073715 TTTCTCTTT
1 TTT-TCTTT
44073724 TTTT-TTT
1 TTTTCTTT
44073731 TT
1 TT
44073733 GATATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.20
8 12 0.48
9 8 0.32
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:44084318 original size:4 final size:4
Alignment explanation
Indices: 44084309--44084334 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
44084299 AAGGGAGCGT
44084309 GGCA GGCA GGCA GGCA GGCA GGCA GG
1 GGCA GGCA GGCA GGCA GGCA GGCA GG
44084335 TTCGTCACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.54, T:0.00
Consensus pattern (4 bp):
GGCA
Found at i:44085434 original size:16 final size:16
Alignment explanation
Indices: 44085413--44085444 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44085403 TAACAGATTA
*
44085413 AATTGACTAAAAAATT
1 AATTGAATAAAAAATT
44085429 AATTGAATAAAAAATT
1 AATTGAATAAAAAATT
44085445 GAACTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AATTGAATAAAAAATT
Found at i:44090090 original size:43 final size:43
Alignment explanation
Indices: 44090029--44090114 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
44090019 TCCATGTCGC
*
44090029 AACACCACATCTGTAAAGTCATGACATTGAAACTGGACAATCA
1 AACACCACATCTGTAAAGTCAAGACATTGAAACTGGACAATCA
44090072 AACACCACATCTGTAAAGTCAAGACATTGAAACTGGACAATCA
1 AACACCACATCTGTAAAGTCAAGACATTGAAACTGGACAATCA
44090115 CTTGGGACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (43 bp):
AACACCACATCTGTAAAGTCAAGACATTGAAACTGGACAATCA
Found at i:44091506 original size:18 final size:18
Alignment explanation
Indices: 44091483--44091524 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
44091473 CGTTGGGGGA
44091483 TGAAATTGAGATCAATTT
1 TGAAATTGAGATCAATTT
44091501 TGAAATTGAGATCAATTT
1 TGAAATTGAGATCAATTT
44091519 TGAAAT
1 TGAAAT
44091525 CGAAACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (18 bp):
TGAAATTGAGATCAATTT
Found at i:44092072 original size:46 final size:46
Alignment explanation
Indices: 44092009--44092173 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 46
44091999 CTAATTGTTT
* *
44092009 TGTAGGTTCAACCCTTACGAGTGATTAGACACTATTATCCGATTTG
1 TGTAGGTTCAACCCTTACGAGTGACTAGACACTATTATACGATTTG
* ** * **
44092055 TGTAGGTTCAACCCTTAC-AGTTGACCAGGGACTATGATTTATTATTTG
1 TGTAGGTTCAACCCTTACGAG-TGACTAGACACTAT--TATACGATTTG
* * * * * **
44092103 TGTAGGTTTAACCCTTATGGGTGACTAGACAGTATTATTCGATTCA
1 TGTAGGTTCAACCCTTACGAGTGACTAGACACTATTATACGATTTG
*
44092149 TGTAGGTTCAACCCTTACGTGTGAC
1 TGTAGGTTCAACCCTTACGAGTGAC
44092174 CAAGAATTAT
Statistics
Matches: 91, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
45 2 0.02
46 55 0.60
48 33 0.36
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (46 bp):
TGTAGGTTCAACCCTTACGAGTGACTAGACACTATTATACGATTTG
Found at i:44092174 original size:94 final size:94
Alignment explanation
Indices: 44092009--44092233 Score: 281
Period size: 94 Copynumber: 2.4 Consensus size: 94
44091999 CTAATTGTTT
* * * * **
44092009 TGTAGGTTCAACCCTTACGAGTGATTAGACACTATTATCCGATTTGTGTAGGTTCAACCCTTACA
1 TGTAGGTTTAACCCTTATGGGTGACTAGACACTATTATCCGATTCATGTAGGTTCAACCCTTACA
* * *
44092074 GTTGACCAGGGACTATGATTTATTATTTG
66 GTTGACCAAGAACTATGATTCATTATTTG
* *
44092103 TGTAGGTTTAACCCTTATGGGTGACTAGACAGTATTATTCGATTCATGTAGGTTCAACCCTTAC-
1 TGTAGGTTTAACCCTTATGGGTGACTAGACACTATTATCCGATTCATGTAGGTTCAACCCTTACA
*
44092167 GTGTGACCAAGAATTATGATTCATTATTTG
66 GT-TGACCAAGAACTATGATTCATTATTTG
* ** * *
44092197 TTTAGGTTTAACCCAAATGGGTAACCAGACACTATTA
1 TGTAGGTTTAACCCTTATGGGTGACTAGACACTATTA
44092234 CTTTTACCTA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
93 2 0.02
94 110 0.98
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (94 bp):
TGTAGGTTTAACCCTTATGGGTGACTAGACACTATTATCCGATTCATGTAGGTTCAACCCTTACA
GTTGACCAAGAACTATGATTCATTATTTG
Found at i:44094757 original size:24 final size:24
Alignment explanation
Indices: 44094730--44094779 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
44094720 CGATGTACTA
* *
44094730 TCAGTCTAATCATTCACATTTATG
1 TCAGTCTAATCAATCACATCTATG
44094754 TCAGTCTAATCAATCACATCTATG
1 TCAGTCTAATCAATCACATCTATG
44094778 TC
1 TC
44094780 TTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (24 bp):
TCAGTCTAATCAATCACATCTATG
Found at i:44101267 original size:12 final size:12
Alignment explanation
Indices: 44101250--44101275 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44101240 GCTACTAACT
44101250 TGGCCACACGGC
1 TGGCCACACGGC
44101262 TGGCCACACGGC
1 TGGCCACACGGC
44101274 TG
1 TG
44101276 ATCACACGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.38, G:0.35, T:0.12
Consensus pattern (12 bp):
TGGCCACACGGC
Found at i:44102395 original size:43 final size:42
Alignment explanation
Indices: 44102348--44102505 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
44102338 AAGCTCGTAC
*
44102348 AATGCCAAAGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 AATGCCAAAGTCCCAGACGTGGTCTTACACGTAATCAAATAT
* *
44102390 CAATGCCACTA-TCCCAGACAG-GGTCTTACACGAAATCAAATAT
1 -AATGCCA-AAGTCCCAGAC-GTGGTCTTACACGTAATCAAATAT
* ** * *
44102433 GATGCTGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-T
1 AATGCCAAAGTCCCAGACGTGGTCTTACACGT-AATCA-AA-TAT
* *
44102477 GATGCCAACGTCCCAGACGTGGTCTTACA
1 AATGCCAAAGTCCCAGACGTGGTCTTACA
44102506 TGATAACACA
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
42 23 0.24
43 40 0.43
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
AATGCCAAAGTCCCAGACGTGGTCTTACACGTAATCAAATAT
Found at i:44114800 original size:2 final size:2
Alignment explanation
Indices: 44114793--44114827 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44114783 AGGCTTAAGG
44114793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44114828 GTAGCAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44114984 original size:3 final size:3
Alignment explanation
Indices: 44114889--44114965 Score: 63
Period size: 3 Copynumber: 25.7 Consensus size: 3
44114879 TGTATTTTAA
*
44114889 TAT TAA TAT TAT TA- TAT TAT TAT TATT TAT TAT TAT TAT T-T GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT
* *
44114934 ATAT TAT TCA- TAC TAT CAT TAT TA- TAT TAT TA
1 -TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
44114966 CCACTATTAC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
2 6 0.10
3 47 0.77
4 8 0.13
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:44115126 original size:3 final size:3
Alignment explanation
Indices: 44115110--44115190 Score: 55
Period size: 3 Copynumber: 27.7 Consensus size: 3
44115100 CCCTTTTTAC
* * *
44115110 TAT TAT TACC TAT TAT T-T TAT TTT TAA TAT TAT TAAGT TA- TAT T-T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT
* *
44115155 T-T TA- TAT TTT TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44115191 ACTTATATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
2 10 0.16
3 45 0.74
4 4 0.07
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:44127442 original size:76 final size:75
Alignment explanation
Indices: 44127352--44127539 Score: 263
Period size: 76 Copynumber: 2.5 Consensus size: 75
44127342 TTCTGTTTTC
** *
44127352 AAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTT
* *
44127416 TT-GTCTTTCAAA
65 TTACTC-ATC-AA
* * *
44127428 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTT
44127493 TACTCATCAA
66 TACTCATCAA
44127503 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
44127540 TGGCTCATGT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
75 37 0.37
76 56 0.56
77 7 0.07
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTT
TACTCATCAA
Found at i:44127649 original size:78 final size:77
Alignment explanation
Indices: 44127426--44127651 Score: 183
Period size: 78 Copynumber: 2.9 Consensus size: 77
44127416 TTGTCTTTCA
* * * * * *
44127426 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCCCAGG---ACACGCTGAGGTAATTTT-
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CCTAGGCTCACATGCCGAGG-ACTTTTC
* * ** *
44127487 AATTTTTACTCATC
64 AAATTCTGTTCGTC
* * ** * **
44127501 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGTGCTGAGGTGTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGCTCACATGCCGAGGACTTTTCAA
*
44127566 TTTCTGTTCGTC
66 ATTCTGTTCGTC
* * *
44127578 AAAAGAAATCAACTCATATTGCTAGAAGTGAGTTGAGGCTCAGGC-CACATGCCGAGGACTTTTT
1 AAAA-AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-AGGCTCACATGCCGAGGACTTTTC
44127642 AAATTCTGTT
64 AAATTCTGTT
44127652 TTAATTTCTA
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
74 4 0.03
75 35 0.29
76 4 0.03
77 22 0.18
78 54 0.44
79 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGGCTCACATGCCGAGGACTTTTCAA
ATTCTGTTCGTC
Found at i:44127851 original size:81 final size:82
Alignment explanation
Indices: 44127668--44127900 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 82
44127658 TCTATTTTTC
* *
44127668 AAAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTT
1 AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG-CACATGCT-GAGGTATTTT
**
44127732 CAAAACCTTCTTTTAAGTT
64 CAAAACCTTCTTTTAAGAA
** *
44127751 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG-ACACGCTGAGGTATTTTCA
1 AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCA
***
44127815 ATTTCTGT-TTTTCAA-AA
66 AAACCT-TCTTTT-AAGAA
* * * *
44127832 AAAAAAAAATCAACTCATATTGTAAAAGATGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGG-CACATGCTGAGGTATTTTC
44127897 AAAA
65 AAAA
44127901 TTCCGTTTTT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
81 63 0.50
82 4 0.03
83 59 0.47
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (82 bp):
AAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCA
AAACCTTCTTTTAAGAA
Found at i:44129654 original size:24 final size:24
Alignment explanation
Indices: 44129627--44129672 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
44129617 GAATTTAACA
44129627 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
44129651 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
44129673 TAGCATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:44137695 original size:24 final size:24
Alignment explanation
Indices: 44137668--44137713 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
44137658 GAATTTAACA
44137668 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
44137692 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
44137714 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:44139441 original size:88 final size:87
Alignment explanation
Indices: 44139291--44139505 Score: 222
Period size: 88 Copynumber: 2.4 Consensus size: 87
44139281 AGTTTATGCT
* * * *
44139291 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTCGAGTCACATGTAGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATGTAGAGCTATTTTC
44139356 AAAATCTATTTTGCGAAT-TCT-G
66 AAAATCTATTTT--GAATGTCTAG
* *
44139378 CTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TAGCTCACGTGCT-GAGCTATT
1 -TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAG-TCACATG-TAGAGCTATT
** * *
44139441 TTCAATTTCTGTTTTTAATGTCTAG
63 TTCAAAATCTATTTTGAATGTCTAG
* * * *
44139466 TTTTAAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGC
44139506 TCAGGATCAC
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
86 3 0.03
87 11 0.10
88 93 0.86
89 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCACATGTAGAGCTATTTTC
AAAATCTATTTTGAATGTCTAG
Found at i:44140063 original size:15 final size:15
Alignment explanation
Indices: 44140045--44140078 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44140035 AACCAACAAA
44140045 CCAAGTACCACCAGC
1 CCAAGTACCACCAGC
*
44140060 CCAAGTACCACCAGT
1 CCAAGTACCACCAGC
44140075 CCAA
1 CCAA
44140079 TACTCAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.44, G:0.12, T:0.09
Consensus pattern (15 bp):
CCAAGTACCACCAGC
Found at i:44140671 original size:28 final size:28
Alignment explanation
Indices: 44140640--44140702 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
44140630 TCCCATATTA
44140640 ATGGGGTATAGGAAA-AGTCTCATAACTT
1 ATGGGGTATA-GAAAGAGTCTCATAACTT
* *
44140668 ATGGGGTATAGAAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAGAGTCTCATAACTT
44140696 ATGGGGT
1 ATGGGGT
44140703 TGATAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGAAAGAGTCTCATAACTT
Found at i:44146117 original size:28 final size:28
Alignment explanation
Indices: 44146065--44146127 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
44146055 TCCTATATTA
*
44146065 ATGGGGTATAGGAAAAGTCCCATAACTT
1 ATGGGGTATAGGAAAAGTCCCATAACCT
* ***
44146093 ATGGGGTATAGGAAGAGTTTTATAACCT
1 ATGGGGTATAGGAAAAGTCCCATAACCT
44146121 ATGGGGT
1 ATGGGGT
44146128 TGATAATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCCCATAACCT
Found at i:44147441 original size:43 final size:43
Alignment explanation
Indices: 44147320--44147476 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
44147310 TGTGTTATCG
* * * *
44147320 TGTAAGACCACGT-TTGAGACATTGGCATCGACT-TATGATTTAA
1 TGTAAGACCATGTCTAG-GACATTGGCATCGA-TATTTGATTTCA
44147363 GTGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTTCA
1 -TGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTTCA
* * *
44147406 TGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTTCA
* * * *
44147449 TGTAAGATCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
44147477 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.30
43 41 0.42
44 25 0.26
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTTCA
Found at i:44149839 original size:41 final size:40
Alignment explanation
Indices: 44149760--44149843 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
44149750 TAATATACAT
* *
44149760 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
44149800 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
44149841 ATA
1 ATA
44149844 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:44149841 original size:5 final size:5
Alignment explanation
Indices: 44149813--44149863 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
44149803 TTATTATATT
* * *
44149813 ATTAT ATTAT ATT-A ATTAA A-TAA AGTAA A-TAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
44149860 ATTA
1 ATTA
44149864 TGACAATTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
4 11 0.26
5 31 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:44149857 original size:10 final size:10
Alignment explanation
Indices: 44149813--44149863 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
44149803 TTATTATATT
* *
44149813 ATTATATTAT
1 ATTAAATTAA
44149823 ATT-AATTAA
1 ATTAAATTAA
*
44149832 A-TAAAGTAA
1 ATTAAATTAA
44149841 A-TAAATTAA
1 ATTAAATTAA
44149850 ATTAAATTAA
1 ATTAAATTAA
44149860 ATTA
1 ATTA
44149864 TGACAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 1 0.03
9 19 0.54
10 15 0.43
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
ATTAAATTAA
Found at i:44150071 original size:17 final size:15
Alignment explanation
Indices: 44150049--44150082 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
44150039 AGGGGAGAAA
44150049 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
44150066 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
44150081 GA
1 GA
44150083 GAAATTAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:44150086 original size:17 final size:18
Alignment explanation
Indices: 44150048--44150086 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
44150038 CAGGGGAGAA
44150048 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
44150066 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
44150082 AGAAA
1 AGAAA
44150087 TTAGGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:44150966 original size:40 final size:40
Alignment explanation
Indices: 44150922--44151032 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
44150912 TCGAGAATTA
*
44150922 AAAGTGAATAGGATCTATTCTTGATTCACTA-AAAGAAACT
1 AAAGTGAATAGGATCTATTCCTGATTCACTAGAAAGAAA-T
* * *
44150962 AAAGTGAATAGGATTTATTCCTGATTCACTAGAAATATAT
1 AAAGTGAATAGGATCTATTCCTGATTCACTAGAAAGAAAT
* * * *
44151002 AAAGTGGATAGGATTTGTTCCTAATTCACTA
1 AAAGTGAATAGGATCTATTCCTGATTCACTA
44151033 TGGTAACTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 58 0.92
41 5 0.08
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (40 bp):
AAAGTGAATAGGATCTATTCCTGATTCACTAGAAAGAAAT
Found at i:44155061 original size:47 final size:47
Alignment explanation
Indices: 44154963--44155090 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 47
44154953 AATTGATAAG
* * * * * *
44154963 TACCTATACCATGACCCGTATCCAAATCAAGGTAACTTATCCCTAAG
1 TACCTATACTATGGCCCGTAACCAAATCAAGGTAACTCATCCCAAAA
* *
44155010 TACCTATACTATGGCCCGTAACCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACTATGGCCCGTAACCAAATCAAGGTAACTCATCCCAAAA
* * * *
44155057 TACCTATA-TCATAGCCCATAGCCACATCAAGGTA
1 TACCTATACT-ATGGCCCGTAACCAAATCAAGGTA
44155091 TTATTCACAC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (47 bp):
TACCTATACTATGGCCCGTAACCAAATCAAGGTAACTCATCCCAAAA
Found at i:44176986 original size:40 final size:40
Alignment explanation
Indices: 44176941--44177107 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44176931 CGGAATATAA
44176941 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44176981 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44177021 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44177061 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44177100 CCGGATAT
1 CCGGATAT
44177108 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44184182 original size:40 final size:40
Alignment explanation
Indices: 44184137--44184303 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44184127 CGGAATATAA
44184137 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * * *
44184177 CCGGATCGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44184217 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44184257 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44184296 CCGGATAT
1 CCGGATAT
44184304 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44191703 original size:33 final size:33
Alignment explanation
Indices: 44191661--44191728 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
44191651 CTGTGTGTGA
* * * *
44191661 CACATAGGCTGGACTGATTTTGGTTGTGTAGGC
1 CACACAGGCTAGACTGATTTGGGCTGTGTAGGC
44191694 CACACAGGCTAGACTGATTTGGGCTGTGTAGGC
1 CACACAGGCTAGACTGATTTGGGCTGTGTAGGC
44191727 CA
1 CA
44191729 TACGAGCGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (33 bp):
CACACAGGCTAGACTGATTTGGGCTGTGTAGGC
Found at i:44196404 original size:24 final size:24
Alignment explanation
Indices: 44196372--44196417 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44196362 TTTTCCATAG
44196372 ATGAATCATCCAAAAATATCTACA
1 ATGAATCATCCAAAAATATCTACA
44196396 ATGAATCATCCAAAAATATCTA
1 ATGAATCATCCAAAAATATCTA
44196418 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (24 bp):
ATGAATCATCCAAAAATATCTACA
Found at i:44197409 original size:30 final size:29
Alignment explanation
Indices: 44197275--44197425 Score: 176
Period size: 29 Copynumber: 5.2 Consensus size: 29
44197265 GTATAGACGC
* *
44197275 CCATCGAATATGAAAAGGGTTGGTTTCAT
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* *
44197304 CTATCAAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
** *
44197333 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
*
44197362 CCATCAAATATGAAAAGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * * * *
44197391 CCATTGATTAAAGAAAAGGGATAGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCAA
44197421 CCATC
1 CCATC
44197426 ATTTAGCACA
Statistics
Matches: 101, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 80 0.79
30 21 0.21
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCAA
Found at i:44203322 original size:27 final size:27
Alignment explanation
Indices: 44203268--44203327 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
44203258 AATATAATAT
*
44203268 AATTATAAAATAATTAAATTGTACTTA
1 AATTATAAAATAATTAAATTGTAATTA
*
44203295 AATTATAAACAT-ATTAAATTTTAATTA
1 AATTATAAA-ATAATTAAATTGTAATTA
*
44203322 ATTTAT
1 AATTAT
44203328 TAATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
AATTATAAAATAATTAAATTGTAATTA
Found at i:44207357 original size:9 final size:9
Alignment explanation
Indices: 44207343--44207382 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
44207333 TTAATTTCAA
44207343 TTAAATTGG
1 TTAAATTGG
44207352 TTAAATTGG
1 TTAAATTGG
*
44207361 TTAAATTGA
1 TTAAATTGG
44207370 TT-AATTCGG
1 TTAAATT-GG
44207379 TTAA
1 TTAA
44207383 TTTTTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 4 0.15
9 22 0.81
10 1 0.04
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (9 bp):
TTAAATTGG
Found at i:44207620 original size:21 final size:20
Alignment explanation
Indices: 44207589--44207634 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
44207579 TTTTTGCTTT
* * *
44207589 TAAAATTTTATGTCTTTTTA
1 TAAAATTTTATATATATTTA
44207609 TAAAACTTTTATATATATTTA
1 TAAAA-TTTTATATATATTTA
44207630 TAAAA
1 TAAAA
44207635 AGATTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
TAAAATTTTATATATATTTA
Found at i:44208656 original size:20 final size:21
Alignment explanation
Indices: 44208633--44208672 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
44208623 AAATAACGAC
44208633 AAAATAGTAAAA-AAAACAAG
1 AAAATAGTAAAACAAAACAAG
44208653 AAAATAGTAAAACAAAACAA
1 AAAATAGTAAAACAAAACAA
44208673 CAATTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.10
Consensus pattern (21 bp):
AAAATAGTAAAACAAAACAAG
Found at i:44212774 original size:22 final size:24
Alignment explanation
Indices: 44212747--44212875 Score: 133
Period size: 25 Copynumber: 5.4 Consensus size: 24
44212737 CACTAATGAA
44212747 CAGAGAGCACTGA-AGTGCT-ATA-
1 CAGAGAGCACTGACA-TGCTAATAT
** **
44212769 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACATGCTAATAT
44212791 CAGAGAGCACTGACATGCTAAATAT
1 CAGAGAGCACTGACATGCT-AATAT
*
44212816 TAGAGAGCACTGACATGCTAAATAT
1 CAGAGAGCACTGACATGCT-AATAT
44212841 CAGAGAGCACTGACATGCTAAATAT
1 CAGAGAGCACTGACATGCT-AATAT
*
44212866 TAGAGAGCAC
1 CAGAGAGCAC
44212876 AAATGTTATA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
21 1 0.01
22 31 0.34
24 1 0.01
25 59 0.64
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (24 bp):
CAGAGAGCACTGACATGCTAATAT
Found at i:44212822 original size:25 final size:25
Alignment explanation
Indices: 44212792--44212875 Score: 159
Period size: 25 Copynumber: 3.4 Consensus size: 25
44212782 TGTGCTAATC
44212792 AGAGAGCACTGACATGCTAAATATT
1 AGAGAGCACTGACATGCTAAATATT
*
44212817 AGAGAGCACTGACATGCTAAATATC
1 AGAGAGCACTGACATGCTAAATATT
44212842 AGAGAGCACTGACATGCTAAATATT
1 AGAGAGCACTGACATGCTAAATATT
44212867 AGAGAGCAC
1 AGAGAGCAC
44212876 AAATGTTATA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAGAGCACTGACATGCTAAATATT
Found at i:44220590 original size:28 final size:27
Alignment explanation
Indices: 44220527--44220596 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44220517 ATAGTGAGTC
44220527 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44220554 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44220582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44220597 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44228574 original size:28 final size:27
Alignment explanation
Indices: 44228511--44228580 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44228501 ATAGTGAGTC
44228511 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44228538 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44228566 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44228581 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44231611 original size:24 final size:24
Alignment explanation
Indices: 44231576--44231623 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
44231566 CATAAAATCA
* * *
44231576 GACATAACAGTAGATGTAGCCACT
1 GACATAAAAGTAGAAGTAACCACT
44231600 GACATAAAAGTAGAAGTAACCACT
1 GACATAAAAGTAGAAGTAACCACT
44231624 AACGTAGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (24 bp):
GACATAAAAGTAGAAGTAACCACT
Found at i:44233543 original size:45 final size:45
Alignment explanation
Indices: 44233479--44233569 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
44233469 CCGTCCAAAA
44233479 CCTCAGAATGTTACACGCCTAGAAGACTAATGTGACTTAAGCATT
1 CCTCAGAATGTTACACGCCTAGAAGACTAATGTGACTTAAGCATT
44233524 CCTCAGAATGTTACACGCCTAGAAGACTAATGTGACTTAAGCATT
1 CCTCAGAATGTTACACGCCTAGAAGACTAATGTGACTTAAGCATT
44233569 C
1 C
44233570 TTTGTGCATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (45 bp):
CCTCAGAATGTTACACGCCTAGAAGACTAATGTGACTTAAGCATT
Found at i:44238197 original size:40 final size:40
Alignment explanation
Indices: 44238144--44238282 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
44238134 GGATATAACG
* *
44238144 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
44238184 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
*
44238224 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
44238263 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
44238283 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.33
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:44243985 original size:25 final size:24
Alignment explanation
Indices: 44243953--44244032 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
44243943 TTCAGTCCAT
44243953 CTTCGAAGCGTTTTCACATCACAA
1 CTTCGAAGCGTTTTCACATCACAA
**** * *
44243977 CTTCTGAAGAACATTCA-GTC-CAT
1 CTTC-GAAGCGTTTTCACATCACAA
44244000 CTTCGAAGCGTTTTCACATCACAA
1 CTTCGAAGCGTTTTCACATCACAA
44244024 CTTCTGAAG
1 CTTC-GAAG
44244033 AAATGCATTC
Statistics
Matches: 40, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 12 0.30
25 12 0.30
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (24 bp):
CTTCGAAGCGTTTTCACATCACAA
Found at i:44244010 original size:47 final size:47
Alignment explanation
Indices: 44243941--44244034 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
44243931 TTTATATCAT
44243941 CATTCAGTCCATCTTCGAAGCGTTTTCACATCACAACTTCTGAAGAA
1 CATTCAGTCCATCTTCGAAGCGTTTTCACATCACAACTTCTGAAGAA
44243988 CATTCAGTCCATCTTCGAAGCGTTTTCACATCACAACTTCTGAAGAA
1 CATTCAGTCCATCTTCGAAGCGTTTTCACATCACAACTTCTGAAGAA
44244035 ATGCATTCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTCAGTCCATCTTCGAAGCGTTTTCACATCACAACTTCTGAAGAA
Found at i:44244015 original size:22 final size:22
Alignment explanation
Indices: 44243943--44244015 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
44243933 TATATCATCA
44243943 TTCAGTCCATCTTCGAAGCGTT
1 TTCAGTCCATCTTCGAAGCGTT
* * ****
44243965 TTCACATCACAACTTCTGAAGAACA
1 TTCA-GTC-CATCTTC-GAAGCGTT
44243990 TTCAGTCCATCTTCGAAGCGTT
1 TTCAGTCCATCTTCGAAGCGTT
44244012 TTCA
1 TTCA
44244016 CATCACAACT
Statistics
Matches: 36, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
22 12 0.33
23 8 0.22
24 8 0.22
25 8 0.22
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (22 bp):
TTCAGTCCATCTTCGAAGCGTT
Found at i:44246267 original size:40 final size:40
Alignment explanation
Indices: 44246214--44246352 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
44246204 GGATATAACG
* *
44246214 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
44246254 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
* *
44246294 ACTTGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
44246333 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
44246353 ATCTTAGTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 4 0.05
39 28 0.33
40 45 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:44248148 original size:11 final size:11
Alignment explanation
Indices: 44248132--44248164 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
44248122 CTTAGAACAG
44248132 ATCCCTTAGTA
1 ATCCCTTAGTA
44248143 ATCCCTTAGTA
1 ATCCCTTAGTA
44248154 AGT-CCTTAGTA
1 A-TCCCTTAGTA
44248165 CTCTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 20 0.95
12 1 0.05
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCCCTTAGTA
Found at i:44249704 original size:13 final size:13
Alignment explanation
Indices: 44249688--44249746 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
44249678 TCTATTTTCA
44249688 TATAACCAATTCT
1 TATAACCAATTCT
*
44249701 TATAATC-ATTCT
1 TATAACCAATTCT
* *
44249713 TATAA-CTATTTT
1 TATAACCAATTCT
* *
44249725 GTACAACCAATTCA
1 -TATAACCAATTCT
44249739 TATAACCA
1 TATAACCA
44249747 TTCGTCATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 1 0.03
12 14 0.39
13 17 0.47
14 4 0.11
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (13 bp):
TATAACCAATTCT
Found at i:44249866 original size:45 final size:45
Alignment explanation
Indices: 44249812--44250190 Score: 224
Period size: 45 Copynumber: 8.4 Consensus size: 45
44249802 TCTCCCATCC
* *
44249812 ATGGTCTTATTTATTTTTTGCATGATGCCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTTATGCATGATGCCATAGTGTCTTTCAACT
* *** *
44249857 ATAGTCTTATTCATTTCCCGTCAT-ATTTCCATAGTGTCTTTCAAAC-
1 ATGGTCTTATTCATTTTATG-CATGA-TGCCATAGTGTCTTTC-AACT
* *
44249903 ATGGTCTTATTCATTTCCTAT-CATGTTGCCGTAGTGTCTTTCAACT
1 ATGGTCTTATTCATTT--TATGCATGATGCCATAGTGTCTTTCAACT
* * ** *
44249949 ATGGTCTTA--CACGTTTAAGTCATGATGCCATAACGTCTTTCAGCT
1 ATGGTCTTATTCA-TTTTATG-CATGATGCCATAGTGTCTTTCAACT
* * ** ** **
44249994 ATCGTCTTACTT-ATTTAAAT-CATGATATCATACCGTCTTTCATTT
1 ATGGTCTTA-TTCATTT-TATGCATGATGCCATAGTGTCTTTCAACT
* ** * * ** *
44250039 ATGGTCTTACTCATCTAAAT-CGTGATGTCATAACGTCTTTCAATT
1 ATGGTCTTATTCAT-TTTATGCATGATGCCATAGTGTCTTTCAACT
* * *
44250084 ATGGTCTTACTT-GTTTT-TGGTATGGTGCCATAGTGTCTTTCAACT
1 ATGGTCTTA-TTCATTTTAT-GCATGATGCCATAGTGTCTTTCAACT
*
44250129 ATGGTCTTATTCATTTT-TCGGTAT-AGTGCCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTTAT--GCATGA-TGCCATAGTGTCTTTCAACT
*
44250175 ATGGTCTTAATCATTT
1 ATGGTCTTATTCATTT
44250191 CCTTCAAGCC
Statistics
Matches: 262, Mismatches: 50, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
43 3 0.01
44 6 0.02
45 145 0.55
46 103 0.39
47 5 0.02
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (45 bp):
ATGGTCTTATTCATTTTATGCATGATGCCATAGTGTCTTTCAACT
Found at i:44249892 original size:46 final size:46
Alignment explanation
Indices: 44249837--44249957 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 46
44249827 TTTTGCATGA
* *
44249837 TGCCATAGTGTCTTTCAACTATAGTCTTATTCATTTCCCGTCATAT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCCATCATAT
* * *
44249883 TTCCATAGTGTCTTTCAAAC-ATGGTCTTATTCATTTCCTATCATGT
1 TGCCATAGTGTCTTTC-AACTATGGTCTTATTCATTTCCCATCATAT
*
44249929 TGCCGTAGTGTCTTTCAACTATGGTCTTA
1 TGCCATAGTGTCTTTCAACTATGGTCTTA
44249958 CACGTTTAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.05
46 60 0.91
47 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCCATCATAT
Found at i:44250169 original size:46 final size:45
Alignment explanation
Indices: 44250073--44250190 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 45
44250063 ATGTCATAAC
* * *
44250073 GTCTTTCAATTATGGTCTTACTT-GTTTTTGGTATGGTGCCATAGT
1 GTCTTTCAACTATGGTCTTA-TTCATTTTTGGTATAGTGCCATAGT
44250118 GTCTTTCAACTATGGTCTTATTCATTTTTCGGTATAGTGCCATAGT
1 GTCTTTCAACTATGGTCTTATTCATTTTT-GGTATAGTGCCATAGT
*
44250164 GTCTTTCAACTATGGTCTTAATCATTT
1 GTCTTTCAACTATGGTCTTATTCATTT
44250191 CCTTCAAGCC
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
44 2 0.03
45 24 0.36
46 41 0.61
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (45 bp):
GTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTGCCATAGT
Found at i:44252047 original size:2 final size:2
Alignment explanation
Indices: 44252040--44252080 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
44252030 TTCAAGAATG
44252040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44252081 GTATGATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:44255836 original size:25 final size:25
Alignment explanation
Indices: 44255806--44255856 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
44255796 GTTTCAACCC
44255806 ACAGCTCGTGTGAACATA-CTGATTT
1 ACAGCTCGTGTGAACATATC-GATTT
*
44255831 ACAGCTCGTGTGAGCATATCGATTT
1 ACAGCTCGTGTGAACATATCGATTT
44255856 A
1 A
44255857 TATCTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
ACAGCTCGTGTGAACATATCGATTT
Found at i:44256293 original size:24 final size:25
Alignment explanation
Indices: 44256246--44256293 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
44256236 TTAACTCTCA
*
44256246 TGAGCTTCCCATTATATAGTTCTTG
1 TGAGCTTCCCATTATATAGCTCTTG
44256271 TGAGCTTCCCATTA-ATAGCTCTT
1 TGAGCTTCCCATTATATAGCTCTT
44256294 CGAAGCATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (25 bp):
TGAGCTTCCCATTATATAGCTCTTG
Found at i:44256445 original size:24 final size:25
Alignment explanation
Indices: 44256404--44256450 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
44256394 GCTCTTTCAT
*
44256404 GAGCTTCTCGATTAATGGCTCTCTG
1 GAGCTTCTCAATTAATGGCTCTCTG
44256429 GAGCTT-TCAATTAATGGCTCTC
1 GAGCTTCTCAATTAATGGCTCTC
44256451 CAAGGCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (25 bp):
GAGCTTCTCAATTAATGGCTCTCTG
Found at i:44256483 original size:25 final size:24
Alignment explanation
Indices: 44256401--44256484 Score: 66
Period size: 24 Copynumber: 3.4 Consensus size: 24
44256391 AAGGCTCTTT
*
44256401 CATGAGCTTCTCGATTAATGGCTCT
1 CATGAGCTTCTCG-TTAATGGCTCA
* *
44256426 C-TGGAGCTT-TCAATTAATGGCTCTC
1 CAT-GAGCTTCTC-GTTAATGGCTC-A
*
44256451 CAAG-GCTTCTCGTTACATGGCTCA
1 CATGAGCTTCTCGTTA-ATGGCTCA
44256475 CATGAGCTTC
1 CATGAGCTTC
44256485 CTATTATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
24 23 0.50
25 23 0.50
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (24 bp):
CATGAGCTTCTCGTTAATGGCTCA
Found at i:44260841 original size:12 final size:12
Alignment explanation
Indices: 44260824--44260849 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44260814 GCATTTCTAA
44260824 TTTCGTACTTTG
1 TTTCGTACTTTG
44260836 TTTCGTACTTTG
1 TTTCGTACTTTG
44260848 TT
1 TT
44260850 ATATCTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (12 bp):
TTTCGTACTTTG
Found at i:44262482 original size:43 final size:43
Alignment explanation
Indices: 44262433--44262622 Score: 197
Period size: 43 Copynumber: 4.4 Consensus size: 43
44262423 ATTGAGATGT
*
44262433 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * **
44262476 TG-TTACATGTAAGACCATGTTTGAGACATTGGCAAGGTATTGA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* *
44262519 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
* * * * * * *
44262562 GATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
*
44262605 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
44262623 ATTTGGCATA
Statistics
Matches: 118, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 111 0.94
44 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:44262595 original size:86 final size:86
Alignment explanation
Indices: 44262433--44262622 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 86
44262423 ATTGAGATGT
* * * *
44262433 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGATGTTACATGTAAGACCATGTTT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATCGATGTTACATATAAGACCATGTCT
* *
44262498 GAGACATTGGCAA-GGTATTGA
66 GAGACAGTGGCAACGATA-TGA
* *
44262519 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTAATCGAT-TT-CGTATAAGACCCTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATCGATGTTACATATAAGACCATGT
* * *
44262582 CTGGGACAGTGGCATCGATATGT
64 CTGAGACAGTGGCAACGATATGA
*
44262605 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
44262623 ATTTGGCATA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
86 78 0.88
87 6 0.07
88 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (86 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATCGATGTTACATATAAGACCATGTCT
GAGACAGTGGCAACGATATGA
Found at i:44264322 original size:40 final size:40
Alignment explanation
Indices: 44264277--44264443 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
44264267 CGGAATATAA
44264277 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
44264317 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44264357 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44264397 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44264436 CCGGATAT
1 CCGGATAT
44264444 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44264427 original size:80 final size:79
Alignment explanation
Indices: 44264293--44264443 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
44264283 ATAATCACGT
*
44264293 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
44264358 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
44264373 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
44264436 CCGGATAT
64 CCGGATAT
44264444 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:44265779 original size:21 final size:20
Alignment explanation
Indices: 44265742--44265780 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
44265732 CATTCTTTTT
* *
44265742 CTCTTTTTTTTTTTTTCATA
1 CTCTTTTTTATTATTTCATA
44265762 CTCTTATTTTATTATTTCA
1 CTCTT-TTTTATTATTTCA
44265781 AACATGCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (20 bp):
CTCTTTTTTATTATTTCATA
Found at i:44271977 original size:228 final size:229
Alignment explanation
Indices: 44271555--44271979 Score: 518
Period size: 228 Copynumber: 1.9 Consensus size: 229
44271545 TTGTACGGTG
* *
44271555 ATAAACCATAATATATACATATTTTTTATCCTACACTTGACATATTTTTGGATGATTTATCATAA
1 ATAAACCATAATATATACATATTTTTTATCCCACACTTGACAAATTTTTGGATGATTTATCATAA
* * * * * *
44271620 GTTTTAGAGAATTTGATGCTCCTAATTCTTTAAATTCTTTTTTTCTACTTAGGTGAGCATATGAA
66 GATTTAGAGAATTCGATGCTCCTAATTCTTTAAATTCATGTTTTATACTTAGGTGAGCATAGGAA
* ** * * * *
44271685 GGTGAAAAGAGCAAGAAATGGGCCAAAAACAGACAAAATGAGCTTATATCAGTATTCCACACGGC
131 GGTGAAAAGAGCAAGAAACGGGCCAAAAACAGACAAAATGAGCCCACATCAGAAATCAACACGGC
44271750 CTAGACACTTTCACACGGGTAATCCACACGCCTT
196 CTAGACACTTTCACACGGGTAATCCACACGCCTT
* * ** * * *
44271784 ATAAACCATAATTTATTCATA-TTTTTATCCCATGCTTAGA-AAATTTTTGGATGATTTCTCCTT
1 ATAAACCATAATATATACATATTTTTTATCCCACACTT-GACAAATTTTTGGATGATTTATCATA
* * *
44271847 AGATTTGGTGAATTCGATGCTCCTAATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGG-
65 AGATTTAGAGAATTCGATGCTCCTAATTCTTTAAATTCATGTTTTATACTTAGGTGAGCATAGGA
* * * *
44271911 AGAGTGAAAAGAGCGAGAAACGGGCCGAAAACGGAGAAAATG-GACCCACAT-AGGAAATCAACA
130 AG-GTGAAAAGAGCAAGAAACGGGCCAAAAACAGACAAAATGAG-CCCACATCA-GAAATCAACA
44271974 CGGCCT
192 CGGCCT
44271980 TGACTTCCTC
Statistics
Matches: 163, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
227 4 0.02
228 138 0.85
229 21 0.13
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (229 bp):
ATAAACCATAATATATACATATTTTTTATCCCACACTTGACAAATTTTTGGATGATTTATCATAA
GATTTAGAGAATTCGATGCTCCTAATTCTTTAAATTCATGTTTTATACTTAGGTGAGCATAGGAA
GGTGAAAAGAGCAAGAAACGGGCCAAAAACAGACAAAATGAGCCCACATCAGAAATCAACACGGC
CTAGACACTTTCACACGGGTAATCCACACGCCTT
Found at i:44276268 original size:18 final size:19
Alignment explanation
Indices: 44276247--44276282 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
44276237 AATAAAGAAA
*
44276247 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
44276265 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
44276283 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:44277677 original size:59 final size:58
Alignment explanation
Indices: 44277581--44277712 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
44277571 AAAATTGTAC
44277581 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
44277639 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
44277698 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44277713 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44277701 original size:88 final size:89
Alignment explanation
Indices: 44277551--44277712 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
44277541 GACAAGATTG
* * *
44277551 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
44277616 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
44277640 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
44277704 AAGTGTGCG
66 AAGTGTGCG
44277713 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:44277724 original size:29 final size:29
Alignment explanation
Indices: 44277581--44277712 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
44277571 AAAATTGTAC
*
44277581 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44277610 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44277639 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
44277669 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44277698 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44277713 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44282391 original size:10 final size:10
Alignment explanation
Indices: 44282376--44282408 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
44282366 TGTTCTTAAA
*
44282376 ATATATATAT
1 ATATATAGAT
44282386 ATATATAGAT
1 ATATATAGAT
44282396 ATATATAGAT
1 ATATATAGAT
44282406 ATA
1 ATA
44282409 CTTCAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (10 bp):
ATATATAGAT
Found at i:44290999 original size:28 final size:26
Alignment explanation
Indices: 44290943--44291055 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
44290933 AGCATGGCTG
** *
44290943 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
44290969 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
44290997 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
44291024 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
44291052 CCAG
1 CCAG
44291056 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.51
28 32 0.42
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44291028 original size:55 final size:54
Alignment explanation
Indices: 44290943--44291055 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
44290933 AGCATGGCTG
* *
44290943 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * *
44290997 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
44291052 CCAG
1 CCAG
44291056 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:44300798 original size:43 final size:43
Alignment explanation
Indices: 44300750--44301045 Score: 310
Period size: 43 Copynumber: 6.9 Consensus size: 43
44300740 ATCGAGATGT
*
44300750 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * * *
44300793 GATTACATGTAAGACCATGTCTAGGACATTGGAAATGTGTGGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
**
44300836 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * *
44300879 GATTACATGTAAGACCATGTCTGGGACATTGGCAATGTGTGGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
** * * * *
44300922 GATTATGTGTAAGACCATGTCTGGGACATTAGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
* * * * * *
44300965 GATTTCATATAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * * *
44301008 GATAACATGTAAGACCATATTTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
44301046 CGAGCTTTGT
Statistics
Matches: 207, Mismatches: 42, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.00
42 8 0.04
43 197 0.95
44 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:44300978 original size:86 final size:86
Alignment explanation
Indices: 44300757--44300998 Score: 369
Period size: 86 Copynumber: 2.8 Consensus size: 86
44300747 TGTGATTACA
* *
44300757 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTAGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTGGGACAT
*
44300822 TGGAAATGTGTGGAGATTATG
66 TGGCAATGTGTGGAGATTATG
44300843 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTGGGACAT
44300908 TGGCAATGTGTGGAGATTATG
66 TGGCAATGTGTGGAGATTATG
* * * * * * *
44300929 TGTAAGACCATGTCTGGGACATTAGCATCGTTAAT-CGATTTCATATAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAGATTACATGTAAGACCATGTCTGGGACA
*
44300993 GTGGCA
65 TTGGCA
44300999 TCGATATGTG
Statistics
Matches: 144, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
86 141 0.98
87 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTGGGACAT
TGGCAATGTGTGGAGATTATG
Found at i:44305430 original size:40 final size:39
Alignment explanation
Indices: 44305339--44305489 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
44305329 ATCACGATTT
* *
44305339 GCACAAATGCCTTGGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
44305379 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
44305419 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
44305459 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
44305490 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:44308524 original size:95 final size:94
Alignment explanation
Indices: 44308346--44308529 Score: 246
Period size: 95 Copynumber: 1.9 Consensus size: 94
44308336 AATTCCTTTT
* * *
44308346 TTTTTTCCATCTTCTTTGTTCTTCTCCTCTTTCTCTCTTCCCTCTAGTTGTAGGCACCGTTGTGT
1 TTTTTTCCATCTTCTTTGTTCTTCTCCTCTTTCTATATTCCCTCTAGTTGTAGGCACCATTGTGT
* * *
44308411 TCAACCATCAATTGATCAGTTTTTTTTCA
66 CCAACCATCAATCGATCAGATTTTTTTCA
* * *
44308440 TTTTTTCCATC-TCTTTTGTTTTTCTCCTCTTTCTATATTCCCCTCTA-TCTGTTGTCACCATTG
1 TTTTTTCCATCTTC-TTTGTTCTTCTCCTCTTTCTATATT-CCCTCTAGT-TGTAGGCACCATTG
44308503 TGTCCAACCATCAATCGATCAGATTTT
63 TGTCCAACCATCAATCGATCAGATTTT
44308530 CAAATCGACT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
93 2 0.03
94 34 0.44
95 42 0.54
ACGTcount: A:0.14, C:0.27, G:0.09, T:0.49
Consensus pattern (94 bp):
TTTTTTCCATCTTCTTTGTTCTTCTCCTCTTTCTATATTCCCTCTAGTTGTAGGCACCATTGTGT
CCAACCATCAATCGATCAGATTTTTTTCA
Found at i:44317564 original size:27 final size:27
Alignment explanation
Indices: 44317515--44317587 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
44317505 TTGGCTATGG
* * * *
44317515 AAACATAAGG-AGTCCATCAGGACAGT
1 AAACATAGGGTAGCCCACCAGGACAAT
44317541 AAACAT-GGGATAGCCCACCAGGACAAT
1 AAACATAGGG-TAGCCCACCAGGACAAT
*
44317568 AAACATAGGGTAGTCCACCA
1 AAACATAGGGTAGCCCACCA
44317588 AGACGGTAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 28 0.72
28 3 0.08
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (27 bp):
AAACATAGGGTAGCCCACCAGGACAAT
Found at i:44330673 original size:30 final size:30
Alignment explanation
Indices: 44330630--44330689 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44330620 TATATTATTA
44330630 TTAATTCTGTTATTATTTTAAAGGCATTTG
1 TTAATTCTGTTATTATTTTAAAGGCATTTG
* * **
44330660 TTAATTTTTTTATTATTTTAGCGGCATTTG
1 TTAATTCTGTTATTATTTTAAAGGCATTTG
44330690 CTTATTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.07, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTCTGTTATTATTTTAAAGGCATTTG
Found at i:44345524 original size:33 final size:33
Alignment explanation
Indices: 44345485--44345553 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
44345475 TTATCTAGCC
44345485 TAAGAATAAGGGGGTTTTATTTTAACTAACTAA
1 TAAGAATAAGGGGGTTTTATTTTAACTAACTAA
44345518 TAAGAATAAGGGGGTTTTATTTTAACTAACTAA
1 TAAGAATAAGGGGGTTTTATTTTAACTAACTAA
44345551 TAA
1 TAA
44345554 TCTAAACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (33 bp):
TAAGAATAAGGGGGTTTTATTTTAACTAACTAA
Found at i:44348395 original size:19 final size:19
Alignment explanation
Indices: 44348351--44348401 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
44348341 ATTTATAATT
**
44348351 ATAAAAT-AAAATTCTAAA
1 ATAAAATAAAAATTAAAAA
**
44348369 ATCTAATAAAAATTAAAAA
1 ATAAAATAAAAATTAAAAA
44348388 ATAAAATAATAAAT
1 ATAAAATAA-AAAT
44348402 AAATGTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 5 0.20
19 16 0.64
20 4 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAAAATAAAAATTAAAAA
Found at i:44354343 original size:11 final size:11
Alignment explanation
Indices: 44354327--44354359 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
44354317 CCAAAACTCC
44354327 TGAAGGGAAAT
1 TGAAGGGAAAT
44354338 TGAAGGGAAAT
1 TGAAGGGAAAT
44354349 TGAAGGGAAAT
1 TGAAGGGAAAT
44354360 CTTTAGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
TGAAGGGAAAT
Found at i:44356388 original size:28 final size:28
Alignment explanation
Indices: 44356343--44356411 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
44356333 CTTAAAACCC
*
44356343 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
44356370 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
44356398 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
44356412 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:44358267 original size:19 final size:18
Alignment explanation
Indices: 44358230--44358273 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
44358220 ATACATACAG
44358230 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
44358247 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
44358266 TACTAATT
1 TAATAATT
44358274 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:44360425 original size:27 final size:27
Alignment explanation
Indices: 44360395--44360664 Score: 276
Period size: 27 Copynumber: 10.1 Consensus size: 27
44360385 CGCCAAGAAT
* * *
44360395 GCATTCCTTTCACAGTAAGCCATAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
** * *
44360422 GCATTTATTTTAGAGTACGCCAC-AA-
1 GCATTCCTTTCAGAGTATGCCACAAAG
* *
44360447 GCATTTCTTTTAGAGTATGCCACAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
* *
44360474 GCATTACTTTTAGAGTATGCCACAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
*
44360501 GCATTCCTTTCAGTGTATGCCACAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
* * * * **
44360528 GCATTCTTTTCAGAATATGCAATAATT
1 GCATTCCTTTCAGAGTATGCCACAAAG
*
44360555 GCATTCCTTTCAGAGTATGCTACAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
* * * *
44360582 GAATTCCTTTCACAGTATGCTAAAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
* *
44360609 GCACTT-CTTTTAGAGTACGCCACAAAG
1 GCA-TTCCTTTCAGAGTATGCCACAAAG
*
44360636 GCATTTCTTTCAGAGTATGCCACAAAG
1 GCATTCCTTTCAGAGTATGCCACAAAG
44360663 GC
1 GC
44360665 TAACACGATG
Statistics
Matches: 203, Mismatches: 36, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
25 21 0.10
26 6 0.03
27 174 0.86
28 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (27 bp):
GCATTCCTTTCAGAGTATGCCACAAAG
Found at i:44367859 original size:21 final size:21
Alignment explanation
Indices: 44367829--44367879 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
44367819 TGTAAAAAGG
44367829 AATGCATAAGTATTATGACAT
1 AATGCATAAGTATTATGACAT
*
44367850 AATGCGTAAGTATTATGACAT
1 AATGCATAAGTATTATGACAT
*
44367871 GATGCATAA
1 AATGCATAA
44367880 TTAGTTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
AATGCATAAGTATTATGACAT
Found at i:44375271 original size:16 final size:16
Alignment explanation
Indices: 44375250--44375288 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
44375240 TATATATTTT
*
44375250 TTATAAATGCTATATA
1 TTATAAATGATATATA
*
44375266 TTATAAATTATATATA
1 TTATAAATGATATATA
44375282 TTATAAA
1 TTATAAA
44375289 ATTATTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
TTATAAATGATATATA
Found at i:44376948 original size:41 final size:41
Alignment explanation
Indices: 44376932--44377192 Score: 402
Period size: 41 Copynumber: 6.4 Consensus size: 41
44376922 GCGTTTTACC
* * *
44376932 AAAAACGCCACT-AAAACCAGAGCAATAGCGGCG-TTTTAGTA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-G-G
** *
44376973 AAAAACGCCGC-AAAAAATAGAGCATTAGCGGCGCTTCTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
44377013 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
44377054 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
44377095 CAAAACGCCGCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
44377136 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
44377177 AAAAACGCCACTAAAA
1 AAAAACGCCGCTAAAA
44377193 GTCATATAAC
Statistics
Matches: 203, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 11 0.05
41 189 0.93
42 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:44377363 original size:7 final size:7
Alignment explanation
Indices: 44377348--44377401 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
44377338 TTAATTATCA
*
44377348 TTATAGT
1 TTATGGT
44377355 TTATGGT
1 TTATGGT
44377362 TTATGGT
1 TTATGGT
* *
44377369 TTAAGAT
1 TTATGGT
*
44377376 ATATGGT
1 TTATGGT
*
44377383 TTAGGGT
1 TTATGGT
*
44377390 TTAAGGT
1 TTATGGT
44377397 TTATG
1 TTATG
44377402 AGTTAACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:44377380 original size:21 final size:21
Alignment explanation
Indices: 44377356--44377440 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
44377346 CATTATAGTT
*
44377356 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
44377377 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
44377398 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
*
44377423 TATAGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
44377441 GTTTAAGAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 32 0.62
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:44377415 original size:46 final size:46
Alignment explanation
Indices: 44377363--44377456 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
44377353 GTTTATGGTT
* *
44377363 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
44377409 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
44377455 TA
1 TA
44377457 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:44377572 original size:44 final size:43
Alignment explanation
Indices: 44377516--44377616 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
44377506 AGGGTTTAAT
* *
44377516 GGTTAGGG-TTAGAGTTTAAG-GTGTAAGGG-TTTGGGGTTAAGG
1 GGTTAGGGTTTAGAGTTT-AGTGTGTAAGGGATAT-GGGTTAAGA
* *
44377558 GGTTAAGGGTTTAGAGTTTAGTGTTTATGGGATATGGGTTAAGA
1 GGTT-AGGGTTTAGAGTTTAGTGTGTAAGGGATATGGGTTAAGA
44377602 GGTTTAGGGTTTAGA
1 GG-TTAGGGTTTAGA
44377617 TTAATTAGCA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.08
43 6 0.12
44 36 0.72
45 4 0.08
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.37
Consensus pattern (43 bp):
GGTTAGGGTTTAGAGTTTAGTGTGTAAGGGATATGGGTTAAGA
Found at i:44377612 original size:7 final size:7
Alignment explanation
Indices: 44377504--44377615 Score: 50
Period size: 7 Copynumber: 15.6 Consensus size: 7
44377494 TTATGATTAA
44377504 TTAGGGT
1 TTAGGGT
*
44377511 TTAATGG-
1 TT-AGGGT
44377518 TTAGGG-
1 TTAGGGT
*
44377524 TTAGAGT
1 TTAGGGT
*
44377531 TTAAGGT
1 TTAGGGT
*
44377538 GTAAGGGT
1 -TTAGGGT
*
44377546 TTGGGGT
1 TTAGGGT
*
44377553 TAAGGGGT
1 TTA-GGGT
*
44377561 TAAGGGT
1 TTAGGGT
*
44377568 TTAGAGT
1 TTAGGGT
*
44377575 TTAGTGT
1 TTAGGGT
44377582 TTATGGG-
1 TTA-GGGT
*
44377589 ATATGGGT
1 TTA-GGGT
*
44377597 TAAGAGGT
1 TTAG-GGT
44377605 TTAGGGT
1 TTAGGGT
44377612 TTAG
1 TTAG
44377616 ATTAATTAGC
Statistics
Matches: 79, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
6 8 0.10
7 47 0.59
8 24 0.30
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.38
Consensus pattern (7 bp):
TTAGGGT
Found at i:44378189 original size:19 final size:18
Alignment explanation
Indices: 44378149--44378191 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
44378139 TTTATGAACT
*
44378149 TTTTTAAAATTTGTTGAT
1 TTTTTAAAATTTGTTGAA
* *
44378167 TTTTTAAATATTTTTTTAA
1 TTTTTAAA-ATTTGTTGAA
44378186 TTTTTA
1 TTTTTA
44378192 TGATTTATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTAAAATTTGTTGAA
Found at i:44379036 original size:18 final size:18
Alignment explanation
Indices: 44379013--44379056 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44379003 CCCAAAATTG
* *
44379013 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
44379031 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
44379049 ATTTCCCC
1 ATTTCCCC
44379057 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:44381021 original size:23 final size:22
Alignment explanation
Indices: 44380966--44381021 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
44380956 CTATTACGTA
*
44380966 GATATAACTGC-TTGGAGACAC
1 GATATAACTGCAGTGGAGACAC
***
44380987 GATATGTTTGCAAGTGGAGACAC
1 GATATAACTGC-AGTGGAGACAC
44381010 GATATAACTGCA
1 GATATAACTGCA
44381022 TAATTTGGCT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
21 8 0.31
22 1 0.04
23 17 0.65
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (22 bp):
GATATAACTGCAGTGGAGACAC
Found at i:44383281 original size:17 final size:18
Alignment explanation
Indices: 44383259--44383292 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
44383249 TACTTGTGGG
44383259 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
44383276 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
44383293 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:44383663 original size:43 final size:44
Alignment explanation
Indices: 44383615--44383714 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
44383605 GATCATTATT
* * * *
44383615 TTTAGCGGCGTTTGTGAGAAAAA-TGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCGAAAAAAAGCGCCGCTAAAGGTCATGATC
44383658 TTTAGCGGCGTTTGCGAAAAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGCGAAAAAAAGCGCCGCTAAAGGTCATGATC
44383702 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
44383715 TTTTCTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 21 0.40
44 31 0.60
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (44 bp):
TTTAGCGGCGTTTGCGAAAAAAAGCGCCGCTAAAGGTCATGATC
Found at i:44383811 original size:27 final size:27
Alignment explanation
Indices: 44383755--44383812 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
44383745 CGTTGCATAT
**
44383755 AGCGACGGTTTTTGCGGCGCTTGGGAA
1 AGCGACGGTTTTTGCGGCGCTTGCCAA
* * *
44383782 AGCGACGTTTTTTGCGGCGCTTTCCCA
1 AGCGACGGTTTTTGCGGCGCTTGCCAA
44383809 AGCG
1 AGCG
44383813 CCGCTAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (27 bp):
AGCGACGGTTTTTGCGGCGCTTGCCAA
Found at i:44384443 original size:40 final size:38
Alignment explanation
Indices: 44384351--44384447 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 38
44384341 ACCATCTCCG
* * *
44384351 TCCAACCCAACACACCATGTGGGGATAAAATCTACCCA
1 TCCAACCCTACACACCATATGGGGATAAAATCAACCCA
* * *
44384389 -CCTATCCCTGCACACCGTATATGGGGATATAATCAACCCA
1 TCC-AACCCTACACACC--ATATGGGGATAAAATCAACCCA
44384429 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
44384448 AAGTACCGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
37 2 0.04
38 13 0.28
40 30 0.64
41 2 0.04
ACGTcount: A:0.34, C:0.36, G:0.11, T:0.19
Consensus pattern (38 bp):
TCCAACCCTACACACCATATGGGGATAAAATCAACCCA
Found at i:44386151 original size:54 final size:53
Alignment explanation
Indices: 44385984--44386151 Score: 156
Period size: 54 Copynumber: 3.1 Consensus size: 53
44385974 GGGCGTTACA
* * * * *
44385984 ATCCTTGCCTTATGAACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGG
1 ATCCTTGCCTTATAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGT
* * ** * * * * *
44386037 ATCTTTGCCTTATTGTAGTTTATCAATGCCATGTCTTGACATGGTATTACATGAT
1 ATCCTTGCCTTA-T-AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGT
* * *
44386092 TTCCTTGCCTCATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGT
1 ATCCTTGCCTTAT-AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGT
44386146 ATCCTT
1 ATCCTT
44386152 AAACCCTAAT
Statistics
Matches: 86, Mismatches: 27, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
53 11 0.13
54 38 0.44
55 37 0.43
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
ATCCTTGCCTTATAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGT
Done.